Jove
Visualize
联系我们
JoVE
x logofacebook logolinkedin logoyoutube logo
关于 JoVE
概览领导团队博客JoVE 帮助中心
作者
出版流程编辑委员会范围与政策同行评审常见问题投稿
图书馆员
用户评价订阅访问资源图书馆顾问委员会常见问题
研究
JoVE JournalMethods CollectionsJoVE Encyclopedia of Experiments存档
教育
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab Manual教师资源中心教师网站
使用条款与条件
隐私政策
政策

相关概念视频

Downsampling01:20

Downsampling

250
When considering a sampled sequence with zero values between sampling instants, one can replace it by taking every N-th value of the sequence. At these integer multiples of N, the original and sampled sequences coincide. This process, known as decimation, involves extracting every N-th sample from a sequence, thereby creating a more efficient sequence.
The Fourier transform of the decimated sequence reveals a combination of scaled and shifted versions of the original spectrum. This...
250
¹³C NMR: ¹H–¹³C Decoupling01:04

¹³C NMR: ¹H–¹³C Decoupling

1.2K
The probability of having two carbon-13 atoms next to each other is negligible because of the low natural abundance of carbon-13. Consequently, peak splitting due to carbon-carbon spin-spin coupling is not observed in spectra. However, protons up to three sigma bonds away split the carbon signal according to the n+1 rule, resulting in complicated spectra.
A broadband decoupling technique is used to simplify these complex, sometimes overlapping, signals. Broadband decoupling relies on a...
1.2K
¹H NMR: Interpreting Distorted and Overlapping Signals01:02

¹H NMR: Interpreting Distorted and Overlapping Signals

1.1K
Spin systems where the difference in chemical shifts of the coupled nuclei is greater than ten times J are called first-order spin systems. These nuclei are weakly coupled, and their chemical shifts and coupling constant can generally be estimated from the well-separated signals in the spectrum.
As Δν decreases and the signals move closer, the doublets appear increasingly distorted. The intensities of the inner lines increase at the cost of those of the outer lines as the signals are...
1.1K
Upsampling01:22

Upsampling

309
Managing signal sampling rates is essential in digital signal processing to maintain signal integrity. A decimated signal, characterized by a reduced frequency range due to its lower sampling rate, can be upsampled by inserting zeros between each sample. This upsampling process expands the original spectrum and introduces repeated spectral replicas at intervals dictated by the new Nyquist frequency. To refine this zero-inserted sequence, it is passed through a lowpass filter with a cutoff...
309

您也可能阅读

相关文章

通过共同作者、期刊和引用图与本文相关的文章。

排序
Same author

Publisher Correction: Interplay between cohesin and RNA polymerase II in regulating chromatin interactions and gene transcription.

Nature structural & molecular biology·2026
Same author

3D chromatin compartment of round spermatids encodes the spatiotemporal program of histone-to-protamine exchange in spermiogenesis.

bioRxiv : the preprint server for biology·2026
Same author

HiChIA-Rep quantifies the similarity between enrichment-based chromatin interactions datasets.

bioRxiv : the preprint server for biology·2026
Same author

Interplay between cohesin and RNA polymerase II in regulating chromatin interactions and gene transcription.

Nature structural & molecular biology·2026
Same author

An integrated view of the structure and function of the human 4D nucleome.

Nature·2025
Same author

Chrom-Sig: de-noising 1D genomic profiles by signal processing methods.

Bioinformatics (Oxford, England)·2025

相关实验视频

Updated: Sep 8, 2025

Competitive Genomic Screens of Barcoded Yeast Libraries
11:59

Competitive Genomic Screens of Barcoded Yeast Libraries

Published on: August 11, 2011

18.4K

克罗姆-Sig:通过信号处理方法消除噪音的一维基因组资料.

Nandita J Gupta1,2, Zachary Apell3,2, Minji Kim2,1

  • 1Department of Electrical and Computer Engineering, University of Michigan, Ann Arbor, MI, USA.

bioRxiv : the preprint server for biology
|August 20, 2025
PubMed
概括

Chrom-Sig是一个新的Python包,可以有效地消除基因组测序数据 (如ChIP-seq和ATAC-seq) 中的技术噪音,而不需要对照样本. 这个工具可以帮助研究人员准确地识别数据中的真实生物信号.

更多相关视频

Mapping the Structure-Function Relationships of Disordered Oncogenic Transcription Factors Using Transcriptomic Analysis
09:58

Mapping the Structure-Function Relationships of Disordered Oncogenic Transcription Factors Using Transcriptomic Analysis

Published on: June 27, 2020

2.8K
Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress
05:22

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Published on: July 29, 2022

3.6K

相关实验视频

Last Updated: Sep 8, 2025

Competitive Genomic Screens of Barcoded Yeast Libraries
11:59

Competitive Genomic Screens of Barcoded Yeast Libraries

Published on: August 11, 2011

18.4K
Mapping the Structure-Function Relationships of Disordered Oncogenic Transcription Factors Using Transcriptomic Analysis
09:58

Mapping the Structure-Function Relationships of Disordered Oncogenic Transcription Factors Using Transcriptomic Analysis

Published on: June 27, 2020

2.8K
Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress
05:22

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Published on: July 29, 2022

3.6K

科学领域:

  • 基因组学就是基因组学.
  • 计算生物学 计算生物学
  • 生物信息学是一种生物信息学.

背景情况:

  • 像ChIP-seq,CUT&Tag,CUT&RUN和ATAC-seq这样的下一代测序 (NGS) 技术对于现代基因组研究至关重要.
  • 这些实验产生覆盖范围数据,用于分析转录因子结合和染色质可访问性.
  • 实验协议中固有的技术噪声使生物信号的准确提取变得复杂.

研究的目的:

  • 开发一个统计严格和计算高效的方法来消除1D基因组覆盖轨道的噪音.
  • 提供一种不需要先前假设或实验控制 (例如输入或尖端控制) 的工具.

主要方法:

  • 开发Chrom-Sig,这是一个用于消除基因组覆盖数据噪音的Python包.
  • 使用实证零分布的计算来区分信号与噪声.
  • 在各种数据集上进行测试,包括ChIP-seq,CUT&RUN,ATAC-seq和snATAC-seq.

主要成果:

  • Chrom-Sig有效地将基因组数据分解为信号和噪声组件.
  • 该包可以有效地执行消除噪音和峰值调用,通常在1-2小时内使用~20GB的内存.
  • 来自CTCF CUT&RUN,ATAC-seq和RNA聚合酶II实验的无噪声数据显示了与已知的调节元素和动机具有生物学意义的相关性.

结论:

  • Chrom-Sig为各种NGS技术产生的基因组覆盖轨道消除噪音提供了一种多功能和通用解决方案.
  • 该工具提高了基因组数据中信号检测的准确性,促进了下游生物解释.
  • Chrom-Sig 是公开的,促进其在研究界的采用.